You can move buttons of the unmaximized Windows to the right side with command gsettings set org.gnome.desktop.wm.preferences button-layout ':minimize,maximize,close' But Window buttons in panel for maximized windows don't respect org.gnome.desktop.wm.preferences like normal windows do :( See bug 1072755 for more info.
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Mantas BaltixJun 6 '13 at 7:02

FWIW, hopefully this will save someone else who is googling this issue the time.. Ubuntu Tweak nor gconf-editor will fix this problem. Seems to be a known issue with Unity. Seems there is no solution in the works either.

Closest thing I saw to a somewhat resolution. Seems to be pawned off on Unity: